2024-10-03
ENA first public
ERC000011
ENA-CHECKLIST
SAMEA111425844
External Id
Tettamanti Research Center, University of Milano-Bicocca
INSDC center name
2022-10-03T11:02:56Z
INSDC last update
public
INSDC status
ERS13519519
SRA accession
E-MTAB-12231:Sample 5 K13
Submitter Id
8
week
age
ArrayExpress
broker name
house mouse
common name
Protocols: FFPE colon section. Whole transcriptome profiles of gut sections, explanted from allogeneic transplanted mice, were evaluated. Different groups of mice were considered, comparing CMKLR1 knock out vs. Wild type mice. Maxwell 16 LEV RNA FFPE Purification kit (Promega) Whole transcriptome RNA-seq analyses have been performed by Next Generation Sequencing (NGS), using the Universal RNAseq kit (Nugen, Tecan). The Universal RNA-Seq is an end-to-end solution for strand-specific RNA-Seq library construction used 250 ng nanogram amounts of total RNA obtained from gut sections. The workflow consists of double-stranded cDNA generation using a mixture of random priming, optional fragmentation of double-stranded cDNA, end repair, adaptor ligation, strand selection, targeted transcript depletion with AnyDeplete for globin genes, and PCR amplification to produce the final library. The yields of final libraries were assessed by Qubit 4.0 fluorimeter and their sizing by Agilent Bioanalyzer.
description
adult
developmental stage
graft versus host disease
disease
wild type genotype
genotype
not applicable
isolate
Mus musculus
organism
Mus musculus
organism
colon
organism part
Mus musculus
scientific_name
male
sex
paraffin specimen
specimen with known storage state
C57/BL6
strain
Sample 5 K13
title
CMKLR1 -/-
transplant donor genotype
Balb/c colon from CMKLR1 -/- mouse
xenograft